BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy1580
(267 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
Star-Gsg Quaking Protein
Length = 140
Score = 90.5 bits (223), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 46/123 (37%), Positives = 78/123 (63%), Gaps = 7/123 (5%)
Query: 25 RVIVPVRDHPKFNFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRISGDP 84
++ VPV+++P FNFVG++LGP+G + K+L+ +T ++ + G+GS+RD+ KEE+ R G P
Sbjct: 5 KLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNR--GKP 62
Query: 85 KFLHLLEELHVEITAFAPPAEAHARIAYALAEVRRFLVPFTRSLFQDYNDEIRQEQMWEM 144
+ HL E+LHV IT A ++ A+ EV++ LVP D +++ ++ E+
Sbjct: 63 NWEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEG-----EDSLKKMKLMEL 117
Query: 145 QIL 147
IL
Sbjct: 118 AIL 120
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch
Site Rna By Splicing Factor 1
Length = 131
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 40/51 (78%)
Query: 21 KVTIRVIVPVRDHPKFNFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRD 71
+V+ +V++P ++P+ NFVG L+GP+GN+LK ++++ ++ I G+GS+++
Sbjct: 6 RVSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKE 56
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 13/87 (14%)
Query: 21 KVTIRVIVPVRDHPKFNFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRI 80
+ TI+V VP + VG ++GPKG ++KR+Q+ T T + G R KE +
Sbjct: 9 QTTIQVRVP------YRVVGLVVGPKGATIKRIQQRTHTYIVTPG------RDKEPVFAV 56
Query: 81 SGDPKFL-HLLEELHVEITAFAPPAEA 106
+G P+ + EE+ IT + P+
Sbjct: 57 TGMPENVDRAREEIEAHITLRSGPSSG 83
>pdb|1X4M|A Chain A, Solution Structure Of Kh Domain In Far Upstream Element
Binding Protein 1
Length = 94
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 40 GKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRISGDPKFLHLLEELHVEI 97
G ++G G ++K+LQE +M ++ G ++ ++ LRI+GDP + +E+ +E+
Sbjct: 27 GLVIGKGGETIKQLQERAGVKMVMIQDGP-QNTGADKPLRITGDPYKVQQAKEMVLEL 83
>pdb|1EC6|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
pdb|1EC6|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
Length = 87
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%)
Query: 37 NFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRISGDP 84
N VG +LG G +L QE T R+ I +G + + I+G P
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSP 59
>pdb|1DTJ|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|C Chain C, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|D Chain D, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
Length = 76
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%)
Query: 37 NFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRISGDP 84
N VG +LG G +L QE T R+ I +G + + I+G P
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSP 59
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 29.6 bits (65), Expect = 1.9, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 37 NFVGKLLGPKGNSLKRLQEDTMTRMAILGRGSIRDRHKEEELRISGDP 84
N VG +LG G +L QE T R+ I +G + ++ I+G P
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKVTITGTP 59
>pdb|3COO|A Chain A, The Crystal Structure Of Reelin-N Domain Of F-Spondin
pdb|3COO|B Chain B, The Crystal Structure Of Reelin-N Domain Of F-Spondin
Length = 180
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 66 RGSIRDRHKEEELRISGDPKFLHLLEELHVEITAFAPPAEAHARIAYALAEVR 118
+G+ R+ + E LR+ GDP F V ++A APP+ AL E R
Sbjct: 29 QGTRREGYTEFSLRVEGDPDFYKPGTSYRVTLSA-APPSYFRGFTLIALRENR 80
>pdb|3VKE|A Chain A, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|B Chain B, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|C Chain C, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|D Chain D, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
Length = 76
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 39 VGKLLGPKGNSLKRLQEDTMTRMAI 63
VG ++G KG S+KR++E++ R+ I
Sbjct: 14 VGSIIGKKGESVKRIREESGARINI 38
>pdb|1GW3|A Chain A, The Helix-Hinge-Helix Structural Motif In Human
Apolipoprotein A-I Determined By Nmr Spectroscopy, 1
Structure
pdb|1GW4|A Chain A, The Helix-Hinge-Helix Structural Motif In Human
Apolipoprotein A-I Determined By Nmr Spectroscopy, 1
Structure
Length = 46
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 119 RFLVPFTRSLFQDYNDEIRQEQMWEMQILKEDGGA 153
R V R+ Y+DE+RQ ++ LKE+GGA
Sbjct: 12 RAHVDALRTHLAPYSDELRQRLAARLEALKENGGA 46
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 39 VGKLLGPKGNSLKRLQEDTMTRMAILGRGSI 69
+G+++GPK + ++QEDT + I G+I
Sbjct: 609 IGEVIGPKRQXINQIQEDTGAEITIEDDGTI 639
>pdb|2ZOT|A Chain A, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|B Chain B, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|C Chain C, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|D Chain D, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
Length = 172
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 66 RGSIRDRHKEEELRISGDPKFLHLLEELHVEITAFAPPAEAHARIAYALAEVR 118
+G+ R+ + E LR+ GDP F V ++A APP+ AL E R
Sbjct: 25 QGTRREGYTEFSLRVEGDPDFYKPGTSYRVTLSA-APPSYFRGFTLIALRENR 76
>pdb|2ZOU|A Chain A, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 2)
pdb|2ZOU|B Chain B, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 2)
Length = 149
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 66 RGSIRDRHKEEELRISGDPKFLHLLEELHVEITAFAPPAEAHARIAYALAEVR 118
+G+ R+ + E LR+ GDP F V ++A APP+ AL E R
Sbjct: 14 QGTRREGYTEFSLRVEGDPDFYKPGTSYRVTLSA-APPSYFRGFTLIALRENR 65
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 28.1 bits (61), Expect = 5.3, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 39 VGKLLGPKGNSLKRLQEDTMTRMAI 63
VG ++G KG S+KR++E++ R+ I
Sbjct: 14 VGSIIGKKGESVKRIREESGARINI 38
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 39 VGKLLGPKGNSLKRLQEDTMTRMAILGRGSI 69
+G+++GPK + ++QEDT + I G+I
Sbjct: 609 IGEVIGPKRQMINQIQEDTGAEITIEDDGTI 639
>pdb|2QZV|A Chain A, Draft Crystal Structure Of The Vault Shell At 9 Angstroms
Resolution
pdb|2QZV|B Chain B, Draft Crystal Structure Of The Vault Shell At 9 Angstroms
Resolution
Length = 873
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 56 DTMTRMAILGRGSIRDRHKEEELRISGDPKFLHLLEELHVEIT 98
DT + + G +R RH ++E+R++ DP L+ E L +IT
Sbjct: 80 DTQSSVLFDITGQVRLRHADQEIRLAQDPFPLYPGEVLEKDIT 122
>pdb|2ZUO|A Chain A, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|B Chain B, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|C Chain C, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|D Chain D, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|E Chain E, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|F Chain F, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|G Chain G, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|H Chain H, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|I Chain I, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|J Chain J, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|K Chain K, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|L Chain L, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZUO|M Chain M, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|N Chain N, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|O Chain O, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|P Chain P, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|Q Chain Q, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|R Chain R, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|S Chain S, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|T Chain T, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|U Chain U, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|V Chain V, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|W Chain W, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|X Chain X, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|Y Chain Y, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV4|Z Chain Z, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|AA Chain a, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|BB Chain b, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|CC Chain c, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|DD Chain d, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|EE Chain e, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|FF Chain f, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|GG Chain g, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|HH Chain h, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|II Chain i, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|JJ Chain j, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|KK Chain k, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|LL Chain l, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
pdb|2ZV5|MM Chain m, The Structure Of Rat Liver Vault At 3.5 Angstrom
Resolution
Length = 861
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 56 DTMTRMAILGRGSIRDRHKEEELRISGDPKFLHLLEELHVEIT 98
DT + + G +R RH ++E+R++ DP L+ E L +IT
Sbjct: 68 DTQSSVLFDITGQVRLRHADQEIRLAQDPFPLYPGEVLEKDIT 110
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,642,675
Number of Sequences: 62578
Number of extensions: 292017
Number of successful extensions: 592
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 574
Number of HSP's gapped (non-prelim): 21
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)